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<h1 class="title"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">装包方式总结</span></h1>
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<section id="普通安装从cran安装" class="level2" data-number="3.1">
<h2 data-number="3.1" class="anchored" data-anchor-id="普通安装从cran安装"><span class="header-section-number">3.1</span> <strong>普通安装(从CRAN安装)</strong></h2>
<div class="sourceCode" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="fu">install.packages</span>(<span class="st">"包名"</span>)</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
<section id="从bioconductor安装主要是一些生物学包" class="level2" data-number="3.2">
<h2 data-number="3.2" class="anchored" data-anchor-id="从bioconductor安装主要是一些生物学包"><span class="header-section-number">3.2</span> <strong>从Bioconductor安装（主要是一些生物学包）</strong></h2>
<div class="sourceCode" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a><span class="co"># 先安装BiocManager包</span></span>
<span id="cb2-2"><a href="#cb2-2" aria-hidden="true" tabindex="-1"></a><span class="fu">install.packages</span>(<span class="st">"BiocManager"</span>)</span>
<span id="cb2-3"><a href="#cb2-3" aria-hidden="true" tabindex="-1"></a><span class="co"># 再调用BiocManager包里的install函数安装</span></span>
<span id="cb2-4"><a href="#cb2-4" aria-hidden="true" tabindex="-1"></a>BiocManager<span class="sc">::</span><span class="fu">install</span>(<span class="st">"包名"</span>)</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
<section id="从github上安装" class="level2" data-number="3.3">
<h2 data-number="3.3" class="anchored" data-anchor-id="从github上安装"><span class="header-section-number">3.3</span> <strong>从GitHub上安装</strong></h2>
<section id="方式一-devtools" class="level3" data-number="3.3.1">
<h3 data-number="3.3.1" class="anchored" data-anchor-id="方式一-devtools"><span class="header-section-number">3.3.1</span> <strong>方式一： devtools</strong></h3>
<div class="sourceCode" id="cb3"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb3-1"><a href="#cb3-1" aria-hidden="true" tabindex="-1"></a><span class="co"># 先安装devtools包</span></span>
<span id="cb3-2"><a href="#cb3-2" aria-hidden="true" tabindex="-1"></a><span class="fu">install.packages</span>(<span class="st">"devtools"</span>)</span>
<span id="cb3-3"><a href="#cb3-3" aria-hidden="true" tabindex="-1"></a><span class="co"># 再调用devtools包里的install_github函数安装</span></span>
<span id="cb3-4"><a href="#cb3-4" aria-hidden="true" tabindex="-1"></a>devtools<span class="sc">::</span><span class="fu">install_github</span>(<span class="st">"github用户名/包名"</span>)</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
<section id="方式二-remotes" class="level3" data-number="3.3.2">
<h3 data-number="3.3.2" class="anchored" data-anchor-id="方式二-remotes"><span class="header-section-number">3.3.2</span> <strong>方式二： remotes</strong></h3>
<div class="sourceCode" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a><span class="co"># 先安装remotes包</span></span>
<span id="cb4-2"><a href="#cb4-2" aria-hidden="true" tabindex="-1"></a><span class="fu">install.packages</span>(<span class="st">"remotes"</span>)</span>
<span id="cb4-3"><a href="#cb4-3" aria-hidden="true" tabindex="-1"></a><span class="co"># 再调用remotes包里的install_github函数安装</span></span>
<span id="cb4-4"><a href="#cb4-4" aria-hidden="true" tabindex="-1"></a>remotes<span class="sc">::</span><span class="fu">install_gitlab</span>(<span class="st">"github用户名/包名"</span>)</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
</section>
<section id="下载到本地安装" class="level2" data-number="3.4">
<h2 data-number="3.4" class="anchored" data-anchor-id="下载到本地安装"><span class="header-section-number">3.4</span> <strong>下载到本地安装</strong></h2>
<section id="cran" class="level3" data-number="3.4.1">
<h3 data-number="3.4.1" class="anchored" data-anchor-id="cran"><span class="header-section-number">3.4.1</span> <strong>CRAN</strong></h3>
<ol type="1">
<li><p>从<a href="https://link.zhihu.com/?target=https%3A//cran.r-project.org/web/packages/available_packages_by_name.html">https://cran.r-project.org/web/packages/available_packages_by_name.html</a>中找到并下载R包到本地</p></li>
<li><p>install.packages(“路径+文件名称”)</p></li>
</ol>
<div class="sourceCode" id="cb5"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb5-1"><a href="#cb5-1" aria-hidden="true" tabindex="-1"></a><span class="fu">install.packages</span>(<span class="st">"C://Users/82414/Downloads/ggplot2_3.3.5.tar.gz"</span>)</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
<p><strong>注意</strong>：还需要按照CRAN上的提示安装此包的依赖包</p>
</section>
<section id="bioconductor" class="level3" data-number="3.4.2">
<h3 data-number="3.4.2" class="anchored" data-anchor-id="bioconductor"><span class="header-section-number">3.4.2</span> Bioconductor</h3>
<p>从<a href="http://bioconductor.org/packages/release/BiocViews.html#___Software" class="uri">http://bioconductor.org/packages/release/BiocViews.html#___Software</a>中找到并下载R包到本地</p>
<p>上述方法</p>
</section>
<section id="github" class="level3" data-number="3.4.3">
<h3 data-number="3.4.3" class="anchored" data-anchor-id="github"><span class="header-section-number">3.4.3</span> <strong>GitHub</strong></h3>
<ol type="1">
<li><p>从<a href="https://link.zhihu.com/?target=https%3A//github.com/">https://github.com/</a>上找到并下载</p></li>
<li><p>解压并在R中打开此路径（setwd(“路径名”)）</p></li>
<li><p>安装</p></li>
</ol>
<div class="sourceCode" id="cb6"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb6-1"><a href="#cb6-1" aria-hidden="true" tabindex="-1"></a>devtools<span class="sc">::</span><span class="fu">install_local</span>()</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
</section>
<section id="conda安装" class="level2" data-number="3.5">
<h2 data-number="3.5" class="anchored" data-anchor-id="conda安装"><span class="header-section-number">3.5</span> <strong>conda安装</strong></h2>
<p>如果使用了conda环境，可以用conda的功能安装R包，还会自动的安装所需要的lib环境，相当省心。</p>
<div class="sourceCode" id="cb7"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb7-1"><a href="#cb7-1" aria-hidden="true" tabindex="-1"></a>conda install r<span class="sc">-</span>包名</span></code><button title="复制到剪贴板" class="code-copy-button"><i class="bi"></i></button></pre></div>
</section>
<section id="常见问题总结" class="level2" data-number="3.6">
<h2 data-number="3.6" class="anchored" data-anchor-id="常见问题总结"><span class="header-section-number">3.6</span> <strong>常见问题总结</strong></h2>
<section id="package-name-is-not-available-for-this-version-of-r" class="level3" data-number="3.6.1">
<h3 data-number="3.6.1" class="anchored" data-anchor-id="package-name-is-not-available-for-this-version-of-r"><span class="header-section-number">3.6.1</span> <strong>package ‘name’ is not available for this version of R</strong></h3>
<p>Warning in install.packages : package ‘Mfuzz’ is not available for this version of R</p>
<ul>
<li><p>可能是包的名字写错了</p></li>
<li><p>通常情况下，一般是需要用到本文中第2或3种方法安装</p></li>
<li><p>从CRAN上检查此包需要的R版本，如果大于您的R版本，需要升级R</p></li>
</ul>
</section>
<section id="依赖包没有装上" class="level3" data-number="3.6.2">
<h3 data-number="3.6.2" class="anchored" data-anchor-id="依赖包没有装上"><span class="header-section-number">3.6.2</span> 依赖包没有装上</h3>
<ul>
<li>去安装报错的依赖包，再去安装想要的那个包</li>
</ul>
</section>
<section id="need-r-4.1.2but-your-r-is-3.6.3" class="level3" data-number="3.6.3">
<h3 data-number="3.6.3" class="anchored" data-anchor-id="need-r-4.1.2but-your-r-is-3.6.3"><span class="header-section-number">3.6.3</span> need R &gt; 4.1.2，but your R is 3.6.3</h3>
<ul>
<li><p>需要升级R</p></li>
<li><p>当然也可以强制安装</p></li>
</ul>
</section>
<section id="缺少rjava" class="level3" data-number="3.6.4">
<h3 data-number="3.6.4" class="anchored" data-anchor-id="缺少rjava"><span class="header-section-number">3.6.4</span> 缺少rjava</h3>
<p>受到R语言实战那本书的影响，xlsx包需要rjava环境，强烈建议弃用xlsx包，换用readxl包</p>
</section>
</section>
<section id="附录" class="level2" data-number="3.7">
<h2 data-number="3.7" class="anchored" data-anchor-id="附录"><span class="header-section-number">3.7</span> <strong>附录</strong></h2>
<ul>
<li>CRAN有哪些包：</li>
</ul>
<p><a href="https://link.zhihu.com/?target=https%3A//cran.r-project.org/web/packages/available_packages_by_name.html"><strong>https://cran.r-project.org/web/packages/available_packages_by_name.html</strong>​cran.r-project.org/web/packages/available_packages_by_name.html</a></p>
<ul>
<li>Bioconductor有哪些包：</li>
</ul>
<p><a href="https://link.zhihu.com/?target=http%3A//bioconductor.org/packages/release/BiocViews.html%23___Software"><strong>Bioconductor - BiocViews</strong>​bioconductor.org/packages/release/BiocViews.html#___Software</a></p>
<ul>
<li>anaconda查包：</li>
</ul>
<p><a href="https://link.zhihu.com/?target=https%3A//anaconda.org/"><strong>https://anaconda.org/</strong>​anaconda.org/</a></p>


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